TY - JOUR T1 - A user’s guide to the online resources for data exploration, visualization, and discovery for the Pan-Cancer Analysis of Whole Genomes project (PCAWG) JF - bioRxiv DO - 10.1101/163907 SP - 163907 AU - Mary Goldman AU - Junjun Zhang AU - Nuno A. Fonseca AU - Isidro Cortés-Ciriano AU - Qian Xiang AU - Brian Craft AU - Elena Piñeiro-Yáñez AU - Brian D O’Connor AU - Wojciech Bazant AU - Elisabet Barrera AU - Alfonso Muñoz-Pomer AU - Robert Petryszak AU - Anja Füllgrabe AU - Fatima Al-Shahrour AU - Maria Keays AU - David Haussler AU - John N. Weinstein AU - Wolfgang Huber AU - Alfonso Valencia AU - Peter J. Park AU - Irene Papatheodorou AU - Jingchun Zhu AU - Vincent Ferretti AU - Miguel Vazquez AU - on behalf of the PCAWG Portals and Visualization Working Group AU - the ICGC/TCGA Pan-Cancer Analysis of Whole Genomes Network Y1 - 2020/01/01 UR - http://biorxiv.org/content/early/2020/02/04/163907.abstract N2 - The Pan-Cancer Analysis of Whole Genomes (PCAWG) project has generated, to our knowledge, the largest whole-genome cancer sequencing resource to date. Here we provide a user’s guide to the five publicly available online data exploration and visualization tools introduced in the PCAWG marker paper: The ICGC Data Portal, UCSC Xena, Expression Atlas, PCAWG-Scout, and Chromothripsis Explorer. We detail use cases and analyses for each tool, show how they incorporate outside resources from the larger genomics ecosystem, as well as demonstrate how the tools can be used together to more deeply understand tumor biology. Together, these tools enable researchers to dynamically query complex genomics data and integrate external information, enabling and enhancing PCAWG data interpretation. More information on these tools and their capabilities is available from The PCAWG Data Portals and Visualizations Page (http://docs.icgc.org/pcawg). ER -